Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 172 of 255
Found at i:56516246 original size:101 final size:99
Alignment explanation
Indices: 56516115--56516361 Score: 291
Period size: 101 Copynumber: 2.5 Consensus size: 99
56516105 TAAGACAGTT
* * * *
56516115 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTTACATGTGT
1 TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTGC
**
56516180 AGTACTAAGTGGGGGCTACTATGCGT-ACCCG-ATAG
66 AGTACTAAGTGCAGGCTACTA--CGTGA-CCGAATAG
* * * *
56516215 CTTCGATCACGTGTGTAGTACTAAGTGCAGGCTATTACGTGTATCAGATGGTTAGGTCACGTGTG
1 -TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTG
* *
56516280 CAGTACTAAGTGCAGGCTACTACGTGACTGAATTG
65 CAGTACTAAGTGCAGGCTACTACGTGACCGAATAG
* * * * *
56516315 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
56516362 GAGCTTCGGT
Statistics
Matches: 124, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
99 44 0.35
100 4 0.03
101 76 0.61
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (99 bp):
TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTGC
AGTACTAAGTGCAGGCTACTACGTGACCGAATAG
Found at i:56516396 original size:150 final size:151
Alignment explanation
Indices: 56516115--56516396 Score: 388
Period size: 150 Copynumber: 1.9 Consensus size: 151
56516105 TAAGACAGTT
* *
56516115 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTTACATGTGT
1 TTAGGTCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGT
** * * ** * * *
56516180 AGTACTAAGTGGGGGCTACTATGCGTACCCGATAGCTTCGATCACGTGTGTAGTACTAAGTGCAG
66 AGTACTAAGTGCAGGCTACTATGCGTACCAGAGAGCTTCGATCACAAGGGTAGTAATAAGTACAG
56516245 GCTATTACGTGTATCAGATGG
131 GCTATTACGTGTATCAGATGG
* *
56516266 TTAGGTCACGTGTGCAGTACTAAGTGCAGGCTACTACGTG-A-CTGAATTGTTAGGTCGCATGTG
1 TTAGGTCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATTGTTAGGTCACATGTG
* * * *
56516329 TAGTACTAAGTGCAGGCTACTATGCGTACCAGAGAGCTTCGGTTACAAGGGTGGTAATATGTACA
65 TAGTACTAAGTGCAGGCTACTATGCGTACCAGAGAGCTTCGATCACAAGGGTAGTAATAAGTACA
56516394 GGC
130 GGC
56516397 CATAGGGTAT
Statistics
Matches: 113, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
149 2 0.02
150 72 0.64
151 39 0.35
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (151 bp):
TTAGGTCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGT
AGTACTAAGTGCAGGCTACTATGCGTACCAGAGAGCTTCGATCACAAGGGTAGTAATAAGTACAG
GCTATTACGTGTATCAGATGG
Found at i:56521961 original size:79 final size:82
Alignment explanation
Indices: 56521843--56522027 Score: 211
Period size: 79 Copynumber: 2.3 Consensus size: 82
56521833 GCTACTCGTT
* * * *
56521843 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGTCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
56521906 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * **
56521923 CAAATACCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
56521986 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
56522003 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56522028 CATCATTCAA
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
78 3 0.03
79 52 0.59
80 33 0.38
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:56522027 original size:40 final size:40
Alignment explanation
Indices: 56521820--56522027 Score: 212
Period size: 40 Copynumber: 5.2 Consensus size: 40
56521810 CCTTCGAAAT
**
56521820 TTAG-CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGAC
* * * *
56521859 ATAGCCCGGTTATAGTAACTCGCACAATTGTCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
56521899 TTAACCCGGATTTAGTAACTCGCACAAATACCTTCGGG-C
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
56521938 TTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-C
* * * *
56521978 TTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGAC
1 TTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGAC
56522018 TTAGCCCGGA
1 TTAGCCCGGA
56522028 CATCATTCAA
Statistics
Matches: 138, Mismatches: 23, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
38 2 0.01
39 35 0.25
40 89 0.64
41 12 0.09
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:56529948 original size:40 final size:40
Alignment explanation
Indices: 56529900--56530084 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
56529890 GCTACTCGTT
56529900 CAAATGCCTTCGGGACATAGCCCGG-TTGTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAGCCCGGATT-TAGTAACTCGCA
* *
56529940 CAATTGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCGCA
* * *
56529980 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCGCA
* * * * * *
56530019 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAGCCCGGATTTAGTAAC-TCGCA
*
56530060 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAGCCCGGA
56530085 CATCATTCAA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.62
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCGCA
Found at i:56530011 original size:79 final size:82
Alignment explanation
Indices: 56529900--56530084 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
56529890 GCTACTCGTT
* * *
56529900 CAAATGCCTTCGGGACATAGCCCGG-TTGTAGTAACTCGCACAATTGCCTTCGGGA-CATAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATGTAGTAACTCGCACAAATGCCTTC-GGATCATAACCC
* *
56529963 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * **
56529980 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATGTAGTAACTCGCACAAATGCCTTCGGATCATAACCCG
* *
56530043 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
56530060 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56530085 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.59
80 34 0.38
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATGTAGTAACTCGCACAAATGCCTTCGGATCATAACCCG
GATATAGTAACTTAGCA
Found at i:56537365 original size:7 final size:7
Alignment explanation
Indices: 56537353--56537382 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
56537343 CGGTGGGTAG
56537353 GAGATTT
1 GAGATTT
56537360 GAGATTT
1 GAGATTT
56537367 GAGATTT
1 GAGATTT
56537374 GAGATTT
1 GAGATTT
56537381 GA
1 GA
56537383 TTGCTGTGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (7 bp):
GAGATTT
Found at i:56551771 original size:38 final size:38
Alignment explanation
Indices: 56551694--56551876 Score: 188
Period size: 39 Copynumber: 4.7 Consensus size: 38
56551684 GCTACTCGTT
*
56551694 CAAATGCCTTCGGGACATAGCCCGGTTGTAGTAACTCGCA
1 CAAATGCCTTC-GGACATAGCCCGGAT-TAGTAACTCGCA
* *
56551734 CAATTGCCTTCGGACATAACCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGACATAGCCCGGATTAGTAACTCGCA
* * *
56551772 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGACATAGCCCGG-ATTAGTAACTCGCA
* * * * *
56551811 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CATAGCCCGGAT-TAGTAAC-TCGCA
*
56551852 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACATAGCCCGGA
56551877 CATCATTCAA
Statistics
Matches: 123, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 32 0.26
39 41 0.33
40 39 0.32
41 11 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (38 bp):
CAAATGCCTTCGGACATAGCCCGGATTAGTAACTCGCA
Found at i:56551812 original size:39 final size:39
Alignment explanation
Indices: 56551675--56551876 Score: 187
Period size: 40 Copynumber: 5.1 Consensus size: 39
56551665 TCGGAATTTA
** *
56551675 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGG-CTTAGC
* * * * * *
56551715 CCGGTTGTAGTAACTCGCACAATTGCCTTCGGACATAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGC
56551754 CCGGAT-TAGTAACTCGCACAAATGCCTTCGGGCTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGC
* * *
56551792 CCGGA-ATTAGTATCTCGCACAAATGCCTTCGGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGG-GCTTAGC
* * *
56551832 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGC
56551872 CCGGA
1 CCGGA
56551877 CATCATTCAA
Statistics
Matches: 134, Mismatches: 21, Indels: 14
0.79 0.12 0.08
Matches are distributed among these distances:
38 33 0.25
39 35 0.26
40 57 0.43
41 9 0.07
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGC
Found at i:56559158 original size:7 final size:7
Alignment explanation
Indices: 56559146--56559175 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
56559136 CGGTGGGTAG
56559146 GAGATTT
1 GAGATTT
56559153 GAGATTT
1 GAGATTT
56559160 GAGATTT
1 GAGATTT
56559167 GAGATTT
1 GAGATTT
56559174 GA
1 GA
56559176 TTGCTGTGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (7 bp):
GAGATTT
Found at i:56565913 original size:37 final size:37
Alignment explanation
Indices: 56565849--56565957 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
56565839 AGCTCAGACG
* *
56565849 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
56565886 AAATCTCCACACGTAGTCATCGAGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
56565923 TAATCTCCACATGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
56565958 ATATATTTCC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:56566229 original size:48 final size:48
Alignment explanation
Indices: 56566103--56566287 Score: 273
Period size: 48 Copynumber: 3.8 Consensus size: 48
56566093 GCACATTGCC
*
56566103 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
56566153 TATATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
* *
56566201 TACATATTTCACATTAGCCATTCGGCTTTACTACATATACATTTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
56566249 TACATTTTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
56566288 TGCATGTTCA
Statistics
Matches: 122, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
48 79 0.65
49 2 0.02
50 41 0.34
ACGTcount: A:0.30, C:0.26, G:0.06, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:56566292 original size:98 final size:98
Alignment explanation
Indices: 56566103--56566286 Score: 293
Period size: 98 Copynumber: 1.9 Consensus size: 98
56566093 GCACATTGCC
*
56566103 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATATTTCACATT
56566168 GACCATTCAGCTTTACCACATATGCATATCTCA
66 GACCATTCAGCTTTACCACATATGCATATCTCA
* * *
56566201 TACATATTTCACATTAGCCATTCGGCTTTACTACATATACATTTCTCATACAT-T-TTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATATTTCACATT
*
56566264 -AGCCATTCGGCTTTACCACATAT
66 GA-CCATTCAGCTTTACCACATAT
56566287 ATGCATGTTC
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
95 1 0.01
96 29 0.36
97 1 0.01
98 49 0.61
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.38
Consensus pattern (98 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATATTTCACATT
GACCATTCAGCTTTACCACATATGCATATCTCA
Found at i:56566336 original size:47 final size:47
Alignment explanation
Indices: 56566257--56566450 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
56566247 CATACATTTT
* * * *
56566257 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
56566304 CCACATTGGCCATTCGGCCTTATCACACATATGCGTGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
56566351 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
56566398 TCACATTGGCCATTCGGCCTTATCTCATATATGCACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
56566445 TCACAT
1 TCACAT
56566451 AAAATCCTAA
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 132 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:56566377 original size:22 final size:22
Alignment explanation
Indices: 56566350--56566421 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
56566340 GCTCACATTC
56566350 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
56566372 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
56566396 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
56566419 ATC
1 ATC
56566422 TCATATATGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:56566451 original size:25 final size:25
Alignment explanation
Indices: 56566372--56566451 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
56566362 ATTCGGCCTT
**
56566372 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
56566397 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
*
56566419 ATCTCATATATGCACATTCACATTC
1 ATCACATATATGCACATTCACATTC
56566444 ATCACATA
1 ATCACATA
56566452 AAATCCTAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
22 9 0.22
23 6 0.15
24 6 0.15
25 19 0.47
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:56574068 original size:57 final size:58
Alignment explanation
Indices: 56573939--56574082 Score: 157
Period size: 57 Copynumber: 2.5 Consensus size: 58
56573929 CATATGTTGC
* * * * * *
56573939 AGATAGAATTTAG-CTCGGACGGGTAATTCTAATGTAAGCCCTCTTGAGCTTAGGTTAT
1 AGATAGGATTTAGCCT-GGACGGGTAATCCAAATGTAAGCCCTCTAGAGCATAGGCTAT
* * * *
56573997 AAATTGGATTTAGCCTGGACGGGTAATCCAAAT-TAAGCTCTCTAGAGCATATGCTAT
1 AGATAGGATTTAGCCTGGACGGGTAATCCAAATGTAAGCCCTCTAGAGCATAGGCTAT
* *
56574054 AGATAGGATTTAGCCTAGACTGGTAATCC
1 AGATAGGATTTAGCCTGGACGGGTAATCC
56574083 TGCTGTAAAA
Statistics
Matches: 71, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
57 44 0.62
58 25 0.35
59 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (58 bp):
AGATAGGATTTAGCCTGGACGGGTAATCCAAATGTAAGCCCTCTAGAGCATAGGCTAT
Found at i:56577394 original size:40 final size:40
Alignment explanation
Indices: 56577347--56577530 Score: 255
Period size: 40 Copynumber: 4.6 Consensus size: 40
56577337 CTCGCACAAG
*
56577347 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
* *
56577387 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGC-TCAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCAT-AAAT
* *
56577427 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCATAAAT
* * *
56577467 GCCTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
*
56577507 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
56577531 CATTCGAATA
Statistics
Matches: 125, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
39 2 0.02
40 122 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
Found at i:56584105 original size:47 final size:47
Alignment explanation
Indices: 56584051--56584497 Score: 696
Period size: 47 Copynumber: 9.5 Consensus size: 47
56584041 AAACCCATAC
*
56584051 GTGAAAGTGTATCTGTGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
56584098 GTGAAAGTGTATCTGTGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAAT
56584145 GTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
56584192 GTGAAAGTGTATCTGTGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
56584239 GTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAAT
1 GTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
56584286 GTGAGAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAAT
1 GTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
56584333 GTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
56584380 GTGAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATGAAT
1 GTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * * * * * *
56584427 GTGAAAGTGTATATATGTGACATGGCCGAGTGGCCAACGTGATGGAT
1 GTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAAT
* **
56584474 GTGAAAGTGCATAAATGTGATAAG
1 GTGAAAGTGTATATGTGTGATAAG
56584498 TCCCGAAGGG
Statistics
Matches: 377, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 377 1.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
GTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:56584672 original size:37 final size:37
Alignment explanation
Indices: 56584616--56584694 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
56584606 CCGAGCTCTA
* *
56584616 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
56584653 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
56584690 AAGAC
1 AAGAC
56584695 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:56590116 original size:40 final size:40
Alignment explanation
Indices: 56590072--56590244 Score: 217
Period size: 40 Copynumber: 4.3 Consensus size: 40
56590062 CCTTCGAGTT
*
56590072 TTAGCCCGGATATGGTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCATAAATGCCTTCGGGAC
* *
56590112 TTAGCCCGGATATAGTCGCTAGC-TCAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCAT-AAATGCCTTCGGGAC
* * * *
56590152 TTAGCCCGGATATAG-CAACTCGAACAAATGCCTTC-GAATC
1 TTAGCCCGGATATAGTC-ACTAGCATAAATGCCTTCGGGA-C
* *
56590192 TTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCATAAATGCCTTCGGGAC
56590232 TTAGCCCGGATAT
1 TTAGCCCGGATAT
56590245 CATTCGAATA
Statistics
Matches: 111, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
39 3 0.03
40 105 0.95
41 3 0.03
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCATAAATGCCTTCGGGAC
Found at i:56597299 original size:5 final size:5
Alignment explanation
Indices: 56597289--56597330 Score: 75
Period size: 5 Copynumber: 8.2 Consensus size: 5
56597279 GTAGATGAAG
56597289 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAGA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAA-A AGAAA A
56597331 AACCGAATCC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 31 0.86
6 5 0.14
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:56601145 original size:40 final size:40
Alignment explanation
Indices: 56601092--56601232 Score: 117
Period size: 40 Copynumber: 3.6 Consensus size: 40
56601082 AACACACCAG
* *
56601092 TTTGGCACCCAATGCCTCATCGGATAATTTGAAGTAATAA
1 TTTGACACCCAATGCCTCATCGAATAATTTGAAGTAATAA
* * ** * *
56601132 TTTGACACTCAATGTCTCATCGCCTAAATCGAAGT-A-AA
1 TTTGACACCCAATGCCTCATCGAATAATTTGAAGTAATAA
* * * *
56601170 -TTGACACCCAGTGCCTCATCGAATTGATCTGAAGTAGTAA
1 TTTGACACCCAATGCCTCATCGAA-TAATTTGAAGTAATAA
* * *
56601210 ATTGACACCCAGTGTCTCATCGA
1 TTTGACACCCAATGCCTCATCGA
56601233 CTCGAAGTCA
Statistics
Matches: 79, Mismatches: 18, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
37 18 0.23
38 9 0.11
39 1 0.01
40 30 0.38
41 21 0.27
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.28
Consensus pattern (40 bp):
TTTGACACCCAATGCCTCATCGAATAATTTGAAGTAATAA
Found at i:56608187 original size:49 final size:51
Alignment explanation
Indices: 56608108--56608352 Score: 247
Period size: 49 Copynumber: 4.9 Consensus size: 51
56608098 ACTATTGTGA
*
56608108 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGA-ATAAT-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAGATAATGT
* * * *
56608157 GGTCTCATGTGTAGTTCTAAGTGCAGGCTACTATGCGTACCCGA-A-AACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCGAGATAA-TGT
* * * ** ** *
56608208 GATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTA-TTAGATGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAGATAATGT
*
56608258 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-AGAT--TGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAGATAATG-T
* * *
56608307 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC-AGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAGATA
56608353 GCTTCGGCTA
Statistics
Matches: 165, Mismatches: 23, Indels: 15
0.81 0.11 0.07
Matches are distributed among these distances:
48 2 0.01
49 78 0.47
50 50 0.30
51 35 0.21
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (51 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAGATAATGT
Found at i:56608244 original size:26 final size:26
Alignment explanation
Indices: 56608215--56608296 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
56608205 TGTGATCACG
56608215 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
* * * *
56608241 TGTGTATTA-GATGGTG-AGG-TCAC-G
1 TGTGTAGTACTA-AGTGCAGGCT-ACTA
56608265 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
*
56608291 CGTGTA
1 TGTGTA
56608297 CCAGATTGTT
Statistics
Matches: 41, Mismatches: 9, Indels: 12
0.66 0.15 0.19
Matches are distributed among these distances:
24 12 0.29
25 12 0.29
26 17 0.41
ACGTcount: A:0.24, C:0.13, G:0.30, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGCAGGCTACTA
Found at i:56609717 original size:27 final size:27
Alignment explanation
Indices: 56609675--56609807 Score: 182
Period size: 27 Copynumber: 5.0 Consensus size: 27
56609665 GTCACTAGAT
56609675 ACAGATAT-TGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
56609701 ACAGATATATGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* * *
56609728 TCAGATA-ATTGTGGCATAGCCACCAGG
1 ACAGATATA-TGTGGCAGAGCCACCAGA
56609755 ACAGATATATGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* *
56609782 TCAGATA-ATTGTGGCATAGCCACCAG
1 ACAGATATA-TGTGGCAGAGCCACCAG
56609808 GACGCTTCCT
Statistics
Matches: 95, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
26 10 0.11
27 84 0.88
28 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.18
Consensus pattern (27 bp):
ACAGATATATGTGGCAGAGCCACCAGA
Found at i:56609808 original size:54 final size:54
Alignment explanation
Indices: 56609671--56609810 Score: 246
Period size: 54 Copynumber: 2.6 Consensus size: 54
56609661 CGAAGTCACT
* *
56609671 AGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACC
1 AGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACC
56609725 AGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACC
1 AGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACC
56609779 AGATCAGATAATTGTGGCATAGCCACCAGGAC
1 AGATCAGATAATTGTGGCATAGCCACCAGGAC
56609811 GCTTCCTCCA
Statistics
Matches: 83, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
53 5 0.06
54 78 0.94
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.18
Consensus pattern (54 bp):
AGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACC
Found at i:56611464 original size:26 final size:26
Alignment explanation
Indices: 56611429--56611537 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
56611419 TGAAATGCCC
* *
56611429 ATCATAGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
56611455 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
56611481 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
56611507 ATCATGGAACATTTTACCTAACCCATT
1 ATCATGGAACA-TTTACCTAACCCATT
56611534 ATCA
1 ATCA
56611538 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
26 58 0.76
27 18 0.24
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:56616335 original size:12 final size:12
Alignment explanation
Indices: 56616318--56616348 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
56616308 AGTACTACCT
56616318 CGGCCTCGACCA
1 CGGCCTCGACCA
56616330 CGGCCTCGACCA
1 CGGCCTCGACCA
56616342 CGGCCTC
1 CGGCCTC
56616349 TTCCCCGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.52, G:0.26, T:0.10
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:56617878 original size:27 final size:27
Alignment explanation
Indices: 56617836--56617968 Score: 182
Period size: 27 Copynumber: 5.0 Consensus size: 27
56617826 GTCACTAGAT
56617836 ACAGATAT-TGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
56617862 ACAGATATATGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* * *
56617889 TCAGATA-ATTGTGGCATAGCCACCAGG
1 ACAGATATA-TGTGGCAGAGCCACCAGA
56617916 ACAGATATATGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* *
56617943 TCAGATA-ATTGTGGCATAGCCACCAG
1 ACAGATATA-TGTGGCAGAGCCACCAG
56617969 GACGCTTCCT
Statistics
Matches: 95, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
26 10 0.11
27 84 0.88
28 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.18
Consensus pattern (27 bp):
ACAGATATATGTGGCAGAGCCACCAGA
Found at i:56617969 original size:54 final size:54
Alignment explanation
Indices: 56617832--56617971 Score: 246
Period size: 54 Copynumber: 2.6 Consensus size: 54
56617822 CGAAGTCACT
* *
56617832 AGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACC
1 AGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACC
56617886 AGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACC
1 AGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACC
56617940 AGATCAGATAATTGTGGCATAGCCACCAGGAC
1 AGATCAGATAATTGTGGCATAGCCACCAGGAC
56617972 GCTTCCTCCA
Statistics
Matches: 83, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
53 5 0.06
54 78 0.94
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.18
Consensus pattern (54 bp):
AGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACC
Found at i:56619621 original size:26 final size:26
Alignment explanation
Indices: 56619590--56619697 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
56619580 TGAAATGCCC
56619590 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
56619616 ATCATGGAACATTTACCT-AACCAATT
1 ATCATGGAACATTTACCTAAACC-ATT
* *
56619642 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
56619668 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
56619694 ATCA
1 ATCA
56619698 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
25 4 0.05
26 69 0.91
27 3 0.04
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:56622512 original size:41 final size:39
Alignment explanation
Indices: 56622383--56622522 Score: 124
Period size: 40 Copynumber: 3.6 Consensus size: 39
56622373 ACACACCAAT
* * * * *
56622383 TTGACACCCAGTGCCTCAACGGATAATTCGAGGTAATAAC
1 TTGACACCCAGTGCCTCATCGAATAATCCGAAGT-ATAAA
* * *
56622423 TTGACACCCAGTGTCTCATC-AGCTAAACCGAAG--TAAA
1 TTGACACCCAGTGCCTCATCGA-ATAATCCGAAGTATAAA
* *
56622460 TTGGCATCCAGTGCCTCATCGAATTAATCCGAAGTATTAAA
1 TTGACACCCAGTGCCTCATCGAA-TAATCCGAAGTA-TAAA
*
56622501 TTGACACCCAGTGTCTCATCGA
1 TTGACACCCAGTGCCTCATCGA
56622523 CTCGAAGTCA
Statistics
Matches: 78, Mismatches: 16, Indels: 11
0.74 0.15 0.10
Matches are distributed among these distances:
37 20 0.26
38 10 0.13
40 25 0.32
41 23 0.29
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (39 bp):
TTGACACCCAGTGCCTCATCGAATAATCCGAAGTATAAA
Found at i:56623503 original size:7 final size:7
Alignment explanation
Indices: 56623491--56623516 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
56623481 GTTTAATTAT
56623491 TATAATA
1 TATAATA
56623498 TATAATA
1 TATAATA
56623505 TATAATA
1 TATAATA
56623512 TATAA
1 TATAA
56623517 ACTTACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TATAATA
Found at i:56634345 original size:47 final size:43
Alignment explanation
Indices: 56634238--56634544 Score: 208
Period size: 47 Copynumber: 6.7 Consensus size: 43
56634228 TTTGTGCGCC
* * * *
56634238 AGTGTAAGACATGCCTGGGACATGCTTCGGC-CATATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTCA-A-CA--AGAGCT
*
56634284 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCCAACCAAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-T-CAA-CAAGAGCT
* * * * *
56634332 AGTGTAAGACATGTCTGGCACATGCATCAGC-CATAGTATAATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTC--A--ACAAGAGCT
* *
56634378 AGTGTAAGACTATGTCTGGGACATGGCATCGG-TACAGAGATGAGTGCT
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCT-CA-ACA--AGAGCT
* *
56634426 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGAGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTCAACA-AG--AGCT
* * *
56634473 AGTGTAAGACATGTCTGGGACATGCATCGGCT-AAGAGTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTCAACA--AGAGCT
56634517 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
56634545 AGCACGCGTA
Statistics
Matches: 212, Mismatches: 29, Indels: 42
0.75 0.10 0.15
Matches are distributed among these distances:
43 1 0.00
44 30 0.14
45 6 0.03
46 44 0.21
47 86 0.41
48 40 0.19
49 1 0.00
50 2 0.01
51 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (43 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTCAACAAGAGCT
Found at i:56634399 original size:94 final size:90
Alignment explanation
Indices: 56634238--56634596 Score: 354
Period size: 94 Copynumber: 3.9 Consensus size: 90
56634228 TTTGTGCGCC
* * * * *
56634238 AGTGTAAGACATGCCTGGGACATGCTTCGGCCATATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATAGTATAAGAGCCAGTGTAAGACCATGTCTGG
56634303 GACATGGCATCGGCATCCAACCAAGGGCT
66 GACATGGCATCGGC-T-CAA--AAGGGCT
* * *
56634332 AGTGTAAGACATGTCTGGCACATGCATCAGCCATAGTATAATAGCCAGTGTAAGACTATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATAGTATAAGAGCCAGTGTAAGACCATGTCTGG
*
56634397 GACATGGCATCGG-TACAGAGATGAGTGCT
66 GACATGGCATCGGCT-CA-A-A--AGGGCT
* * *
56634426 AGTGTAAGACATGTCTGGGACATGCATCGGCC-TCG-ACAGAGATAGCCAGTGTAAGA-CATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATAGTATA-AG--AGCCAGTGTAAGACCATGTC
*
56634488 TGGGACAT-GCATCGGCT-AAGAGTTGTGCT
63 TGGGACATGGCATCGGCTCAAAAG--G-GCT
* * *
56634517 AGTGTAAGACATGTCTGGGACATGCATCAGCACGCGTA-TATGAGAGCCAGTGTAAGACCATGTT
1 AGTGTAAGACATGTCTGGGACATGCATCAG--C-CATAGTATAAGAGCCAGTGTAAGACCATGTC
*
56634581 TGGGGCATGGCATCGG
63 TGGGACATGGCATCGG
56634597 TAATATATCC
Statistics
Matches: 223, Mismatches: 25, Indels: 34
0.79 0.09 0.12
Matches are distributed among these distances:
88 2 0.01
91 33 0.15
92 20 0.09
93 24 0.11
94 129 0.58
95 15 0.07
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (90 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATAGTATAAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGGCTCAAAAGGGCT
Found at i:56634488 original size:141 final size:140
Alignment explanation
Indices: 56634235--56634596 Score: 373
Period size: 141 Copynumber: 2.6 Consensus size: 140
56634225 TGATTTGTGC
* * * *
56634235 GCCAGTGTAAGACATGCCTGGGACATGCTTCGGCCATATTATGAGAGCCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGCCTGGGACATGCATCGGACAGATGATGAGAGCCAGTGTAAGACCATGTC
* *
56634300 TGGGACATGGCATCGGCATCCAACCAAGGGCTAGTGTAAGACATGTCTGGCACATGCATCAGCCA
66 TGGGACATGGCATCGGCATCCAACCAAGAGCCAGTGTAAGACATGTCTGGCACATGCATCAGCCA
56634365 TAGTATAATA
131 TAGTATAATA
* * *
56634375 GCCAGTGTAAGACTATGTCTGGGACATGGCATCGGTACAGA-GATGAGTGCTAGTGTAAGA-CAT
1 GCCAGTGTAAGAC-ATGCCTGGGACAT-GCATCGG-ACAGATGATGAGAGCCAGTGTAAGACCAT
* * *
56634438 GTCTGGGACAT-GCATCGGCCT-CGA-CAGAGATAGCCAGTGTAAGACATGTCTGGGACATGCAT
63 GTCTGGGACATGGCATCGGCATCCAACCA-AG--AGCCAGTGTAAGACATGTCTGGCACATGCAT
* * **
56634500 CGGCTA-AG-AGTTGT-
125 CAGCCATAGTA-TAATA
* * * *
56634514 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGCGTAT-ATGAGAGCCAGTGTAAGACCAT
1 GCCAGTGTAAGACATGCCTGGGACATGCATC-GGAC-AG-ATGATGAGAGCCAGTGTAAGACCAT
* *
56634578 GTTTGGGGCATGGCATCGG
63 GTCTGGGACATGGCATCGG
56634597 TAATATATCC
Statistics
Matches: 186, Mismatches: 23, Indels: 25
0.79 0.10 0.11
Matches are distributed among these distances:
137 7 0.04
138 17 0.09
139 34 0.18
140 38 0.20
141 65 0.35
142 22 0.12
143 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (140 bp):
GCCAGTGTAAGACATGCCTGGGACATGCATCGGACAGATGATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCATCCAACCAAGAGCCAGTGTAAGACATGTCTGGCACATGCATCAGCCA
TAGTATAATA
Found at i:56641935 original size:47 final size:46
Alignment explanation
Indices: 56641823--56642188 Score: 255
Period size: 47 Copynumber: 7.8 Consensus size: 46
56641813 GGTGATTTGT
* *
56641823 GTGCCAGTGTAAGACATGTCTGGGACATGCTTCGGC--CACATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATC-CA-GATGA
* * *
56641869 GAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCATCCAGACGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCCAGATGA
* * * * *
56641917 GTGCTAGTGTAAGACATGTCTGGCACATGCATCAGCCATAC-TAT-A
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC-GGCATCCAGATGA
* * * * * **
56641962 ATAGCCAGTGTAATACCACGTATGGGACATGGCATCGGCTTAGAGATGA
1 GT-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCCAGATGA
* *
56642011 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGA-GA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATC--CAGATGA
* * * *
56642058 -TAGCCAGTGTAAGACGTGTCTGGGACATGCATCAGC-T-AAGA-GTT
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCCAGATG-A
* ** * * *
56642102 GTGCTAGTGTAAGACATGTCTGGGACATGCATTAGCATGCATATATAA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCAT-C-CAGATGA
*
56642150 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA
56642189 ATATATCCCA
Statistics
Matches: 251, Mismatches: 47, Indels: 40
0.74 0.14 0.12
Matches are distributed among these distances:
43 4 0.02
44 31 0.12
45 4 0.02
46 39 0.16
47 92 0.37
48 55 0.22
49 18 0.07
50 8 0.03
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCCAGATGA
Found at i:56641989 original size:94 final size:92
Alignment explanation
Indices: 56641823--56642188 Score: 402
Period size: 94 Copynumber: 3.9 Consensus size: 92
56641813 GGTGATTTGT
* * * * * * *
56641823 GTGCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAATGTAAGACCATG
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATAAGAGCCAGTGTAAGACCATG
*
56641888 TCTGGGACATGGCATCGGCATCCAGACGA
66 TCTGGGACATGGCATCGGCAT-AAGA-GA
* * * *
56641917 GTGCTAGTGTAAGACATGTCTGGCACATGCATCAGCCATACTATAATAGCCAGTGTAATACCACG
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATAAGAGCCAGTGTAAGACCATG
* *
56641982 TATGGGACATGGCATCGGCTTAGAGATGA
66 TCTGGGACATGGCATCGGCATA-AGA-GA
* * *
56642011 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGAC-AGAGATAGCCAGTGTAAGA-C
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAT--ACTATA-AGAGCCAGTGTAAGACC
* * *
56642073 GTGTCTGGGACAT-GCATCAGC-TAAGAGTT
63 ATGTCTGGGACATGGCATCGGCATAAGAG-A
*
56642102 GTGCTAGTGTAAGACATGTCTGGGACATGCATTAGCATGCATA-TATAAGAGCCAGTGTAAGACC
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGC---CATACTATAAGAGCCAGTGTAAGACC
56642166 ATGTCTGGGACATGGCATCGGCA
63 ATGTCTGGGACATGGCATCGGCA
56642189 ATATATCCCA
Statistics
Matches: 229, Mismatches: 30, Indels: 25
0.81 0.11 0.09
Matches are distributed among these distances:
90 1 0.00
91 37 0.16
92 16 0.07
93 24 0.10
94 134 0.59
95 17 0.07
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (92 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATAAGAGCCAGTGTAAGACCATG
TCTGGGACATGGCATCGGCATAAGAGA
Found at i:56642184 original size:141 final size:140
Alignment explanation
Indices: 56641822--56642188 Score: 385
Period size: 141 Copynumber: 2.6 Consensus size: 140
56641812 GGGTGATTTG
*
56641822 TGTGCCAGTGTAAGACATGTCTGGGACATGC-TTCGGCCA-CAT-TATGAGAGCCAATGTAAGAC
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATT-GG-CATCATATATGAGAGCCAGTGTAAGAC
*
56641884 CATGTCTGGGACATGGCATCGGCATCCAGACGAGTGCTAGTGTAAGACATGTCTGGCACATGCAT
64 CATGTCTGGGACATGGCATCGGCATCCAGACGAGTGCCAGTGTAAGACATGTCTGGCACATGCAT
**
56641949 CAGCCATACTAT
129 CAGCCATAAGAT
** * * * * * * * * *
56641961 AATAGCCAGTGTAATACCACGTATGGGACATGGCATCGGC-TTAGAGATGAGTGCTAGTGTAAGA
1 TGT-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCATCATATATGAGAGCCAGTGTAAGA
* * *
56642025 -CATGTCTGGGACAT-GCATCGGCCT-C-GACAGAGATAGCCAGTGTAAGACGTGTCTGGGACAT
63 CCATGTCTGGGACATGGCATCGGCATCCAGAC-GAG-T-GCCAGTGTAAGACATGTCTGGCACAT
56642086 GCATCAG-C-TAAGAGT
125 GCATCAGCCATAAGA-T
* * *
56642101 TGTGCTAGTGTAAGACATGTCTGGGACATGCATTAGCATGCATATATAAGAGCCAGTGTAAGACC
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATTGGCAT-CATATATGAGAGCCAGTGTAAGACC
56642166 ATGTCTGGGACATGGCATCGGCA
65 ATGTCTGGGACATGGCATCGGCA
56642189 ATATATCCCA
Statistics
Matches: 181, Mismatches: 33, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
137 6 0.03
138 16 0.09
139 35 0.19
140 38 0.21
141 66 0.36
142 19 0.10
143 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (140 bp):
TGTGCCAGTGTAAGACATGTCTGGGACATGCATTGGCATCATATATGAGAGCCAGTGTAAGACCA
TGTCTGGGACATGGCATCGGCATCCAGACGAGTGCCAGTGTAAGACATGTCTGGCACATGCATCA
GCCATAAGAT
Found at i:56646819 original size:9 final size:9
Alignment explanation
Indices: 56646805--56646830 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
56646795 GAGCAAGGAC
56646805 TGAATTGTA
1 TGAATTGTA
56646814 TGAATTGTA
1 TGAATTGTA
56646823 TGAATTGT
1 TGAATTGT
56646831 GAAATTTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (9 bp):
TGAATTGTA
Found at i:56647932 original size:50 final size:51
Alignment explanation
Indices: 56647854--56647982 Score: 181
Period size: 50 Copynumber: 2.5 Consensus size: 51
56647844 GACCATGGCA
*
56647854 ACAAGTGATAAGTGATAGCTTCGACTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
* *
56647905 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
56647955 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
56647983 CTGATCAGTG
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
50 43 0.61
51 27 0.39
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:56647996 original size:31 final size:31
Alignment explanation
Indices: 56647958--56648138 Score: 231
Period size: 31 Copynumber: 5.8 Consensus size: 31
56647948 ACAAATGACA
*
56647958 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
56647989 AGTGAAAAATGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
56648020 AGTGAAAAGTGGTAG-TTCAGGTTACCTGAAT-
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTG-ATC
* *
56648051 AGTGAAAAGTGGTAGCTCCGGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
56648082 AGTGAAAAAATGATAGCTCCGGCTACCTGATC
1 AGTG-AAAAGTGGTAGCTTCGGCTACCTGATC
*
56648114 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
56648139 AAGTGACAAG
Statistics
Matches: 131, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
30 5 0.04
31 94 0.72
32 32 0.24
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:56648127 original size:94 final size:93
Alignment explanation
Indices: 56647958--56648128 Score: 270
Period size: 94 Copynumber: 1.8 Consensus size: 93
56647948 ACAAATGACA
* * * *
56647958 AGTGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGAAAAATGGTAGCTTCTGCTACCTGATCAGT
1 AGTGAAAAGTGGTAGCTCCAGCTACCTGATCAGTGAAAAATGATAGCTCCGGCTACCTGATCAGT
56648023 GAAAAGTGGTAGTTCAGGTTACCTGAAT
66 GAAAAGTGGTAGTTCAGGTTACCTGAAT
* *
56648051 AGTGAAAAGTGGTAGCTCCGGCTACCTGATTAGTGAAAAAATGATAGCTCCGGCTACCTGATCAG
1 AGTGAAAAGTGGTAGCTCCAGCTACCTGATCAGTG-AAAAATGATAGCTCCGGCTACCTGATCAG
*
56648116 TGAATAGTGGTAG
65 TGAAAAGTGGTAG
56648129 CTTCGGCTAC
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
93 32 0.46
94 38 0.54
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.26
Consensus pattern (93 bp):
AGTGAAAAGTGGTAGCTCCAGCTACCTGATCAGTGAAAAATGATAGCTCCGGCTACCTGATCAGT
GAAAAGTGGTAGTTCAGGTTACCTGAAT
Found at i:56648233 original size:47 final size:48
Alignment explanation
Indices: 56648164--56648288 Score: 150
Period size: 47 Copynumber: 2.7 Consensus size: 48
56648154 AGTGATTTCC
* *
56648164 GTATAAGACCATATTTGGGATATGGCATCGATGTGATATATGCT-A-CT
1 GTATAAGACCATATCTGGGATATGGCATCGATGTGAGATATG-TGATCT
*
56648211 GTATAAGACCATATCTGGGATATGGCATC-A-GTGAGATATGTGATTT
1 GTATAAGACCATATCTGGGATATGGCATCGATGTGAGATATGTGATCT
* * * *
56648257 GTGTAAGACCATAGCCGGGCTATGGCATCGAT
1 GTATAAGACCATATCTGGGATATGGCATCGAT
56648289 ATATGAAGAT
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
44 1 0.01
45 10 0.15
46 27 0.40
47 29 0.43
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (48 bp):
GTATAAGACCATATCTGGGATATGGCATCGATGTGAGATATGTGATCT
Found at i:56657032 original size:25 final size:25
Alignment explanation
Indices: 56657004--56657057 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
56656994 GGCCCTTGAG
*
56657004 CTTCACGCTATATGGTTCTTGCAAA
1 CTTCACGCTATATAGTTCTTGCAAA
** * *
56657029 CTTCTTGTTATATAGTTCTTGCAAG
1 CTTCACGCTATATAGTTCTTGCAAA
56657054 CTTC
1 CTTC
56657058 CGGTTAATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (25 bp):
CTTCACGCTATATAGTTCTTGCAAA
Found at i:56657063 original size:25 final size:25
Alignment explanation
Indices: 56657012--56657063 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
56657002 AGCTTCACGC
* **
56657012 TATATGGTTCTTGCAAACTTCTTGT
1 TATATAGTTCTTGCAAACTTCCGGT
*
56657037 TATATAGTTCTTGCAAGCTTCCGGT
1 TATATAGTTCTTGCAAACTTCCGGT
56657062 TA
1 TA
56657064 ATATGTAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.21, C:0.17, G:0.17, T:0.44
Consensus pattern (25 bp):
TATATAGTTCTTGCAAACTTCCGGT
Found at i:56661420 original size:26 final size:26
Alignment explanation
Indices: 56661391--56661459 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
56661381 ACCTATATAT
56661391 GGCTCTTCGTGAGCTTCCTAATTAAA
1 GGCTCTTCGTGAGCTTCCTAATTAAA
* * *
56661417 GGCTCTTTGTGAGCTTCCTGATTAAT
1 GGCTCTTCGTGAGCTTCCTAATTAAA
*
56661443 GGCTCTCCG-GAGCTTCC
1 GGCTCTTCGTGAGCTTCC
56661460 CTATATGGCT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
25 8 0.21
26 30 0.79
ACGTcount: A:0.16, C:0.26, G:0.23, T:0.35
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCTAATTAAA
Found at i:56664653 original size:15 final size:15
Alignment explanation
Indices: 56664627--56664666 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
56664617 AGATTTCAAT
56664627 CATCCTCCTCATCACC
1 CATCCTCCTCATC-CC
*
56664643 CA-CCTCTTCATCCC
1 CATCCTCCTCATCCC
56664657 CATCCTCCTC
1 CATCCTCCTC
56664667 CTCTTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 4 0.19
15 15 0.71
16 2 0.10
ACGTcount: A:0.15, C:0.57, G:0.00, T:0.28
Consensus pattern (15 bp):
CATCCTCCTCATCCC
Found at i:56666806 original size:37 final size:36
Alignment explanation
Indices: 56666744--56666819 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
56666734 GATAATCATT
*
56666744 TTAATATTAAATTAATAAAATACTATTAAGATAAGTA
1 TTAATATTAAATTAATAAAATACTATTAAAATAA-TA
*
56666781 TTAA-ATTAAATTTAATATTAA-ACTATTAAAATAATA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATAATA
56666817 TTA
1 TTA
56666820 TTTTTGGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 11 0.31
37 22 0.63
38 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (36 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAATA
Found at i:56670925 original size:93 final size:93
Alignment explanation
Indices: 56670813--56670984 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
56670803 CGCCCATAAG
*
56670813 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
56670877 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
56670906 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
56670971 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
56670985 TCAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:56670979 original size:46 final size:46
Alignment explanation
Indices: 56670806--56670981 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
56670796 TGTAACCCGC
* *
56670806 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
56670852 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
56670902 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
56670945 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
56670982 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:56678474 original size:93 final size:93
Alignment explanation
Indices: 56678362--56678533 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
56678352 CGCCCATAAG
*
56678362 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
56678426 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
56678455 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
56678520 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
56678534 TCAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:56678528 original size:46 final size:46
Alignment explanation
Indices: 56678355--56678530 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
56678345 TGTAACCCGC
* *
56678355 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
56678401 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
56678451 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
56678494 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
56678531 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:56687534 original size:12 final size:12
Alignment explanation
Indices: 56687517--56687549 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
56687507 CCCTCGTTTA
*
56687517 TTTTCACTCACT
1 TTTTCACTCACC
56687529 TTTTCACTCACC
1 TTTTCACTCACC
56687541 TTTTCACTC
1 TTTTCACTC
56687550 TTTTCTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.36, G:0.00, T:0.48
Consensus pattern (12 bp):
TTTTCACTCACC
Found at i:56690775 original size:55 final size:54
Alignment explanation
Indices: 56690688--56690942 Score: 262
Period size: 55 Copynumber: 4.8 Consensus size: 54
56690678 ATTAGGGTTT
*
56690688 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
56690743 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* *
56690798 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAA--TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGT-AAGTTTC-TAAGGC
*
56690851 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * * *
56690900 AAGGATACCACGTAAGACCATGACAAGTCATGG-AAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
56690943 GTACCCATGT
Statistics
Matches: 171, Mismatches: 19, Indels: 26
0.79 0.09 0.12
Matches are distributed among these distances:
48 2 0.01
49 37 0.22
52 9 0.05
53 39 0.23
54 12 0.07
55 66 0.39
56 6 0.04
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:56690894 original size:108 final size:108
Alignment explanation
Indices: 56690695--56690895 Score: 316
Period size: 108 Copynumber: 1.8 Consensus size: 108
56690685 TTTAAGGATA
*
56690695 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAA-G-TTCTAAGGCAAGGAAACCATGTAAGA
*
56690760 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
64 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
*
56690805 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAA-TTCATAAGGCAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGT-AAGTTC-TAAGGCAAGGAAACCATGTAAGA
*
56690868 CCATGTCAAGACATGGCAATGGTAAGTT
64 CCATGTCAAGACATGGCAATGATAAGTT
56690896 TCAAAAGGAT
Statistics
Matches: 85, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
107 3 0.04
108 47 0.55
109 6 0.07
110 29 0.34
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (108 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGTTCTAAGGCAAGGAAACCATGTAAGACC
ATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:56691037 original size:23 final size:24
Alignment explanation
Indices: 56691011--56691055 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
56691001 AAGGTAAGGT
*
56691011 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
56691034 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
56691056 GAAGAGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:56691155 original size:16 final size:16
Alignment explanation
Indices: 56691134--56691164 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56691124 ATAAATCTGA
56691134 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
56691150 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
56691165 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:56692693 original size:15 final size:15
Alignment explanation
Indices: 56692673--56692705 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
56692663 ATAATACTTG
56692673 AATTTCATGAAGTAA
1 AATTTCATGAAGTAA
56692688 AATTTCATGAAGTAA
1 AATTTCATGAAGTAA
56692703 AAT
1 AAT
56692706 AAGAAATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.33
Consensus pattern (15 bp):
AATTTCATGAAGTAA
Found at i:56695558 original size:20 final size:20
Alignment explanation
Indices: 56695527--56695572 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
56695517 TAGCATTTAT
56695527 CTCATG-AACTTAGACTCAA
1 CTCATGAAACTTAGACTCAA
56695546 CTCATGAAACTTAGACTCAA
1 CTCATGAAACTTAGACTCAA
56695566 CTCATGA
1 CTCATGA
56695573 GTTCAGACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.26
Consensus pattern (20 bp):
CTCATGAAACTTAGACTCAA
Found at i:56695696 original size:36 final size:36
Alignment explanation
Indices: 56695649--56695722 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
56695639 GCTTCATATC
56695649 TAATCGAATAGCATCGCATATGCTCACACTGTAATT
1 TAATCGAATAGCATCGCATATGCTCACACTGTAATT
*
56695685 TAATCGAATAGCATCGCATATGTTCACACTGTAATT
1 TAATCGAATAGCATCGCATATGCTCACACTGTAATT
56695721 TA
1 TA
56695723 CTCGCATAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (36 bp):
TAATCGAATAGCATCGCATATGCTCACACTGTAATT
Found at i:56700352 original size:28 final size:29
Alignment explanation
Indices: 56700287--56700385 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
56700277 CATGAGATTG
* *
56700287 GCACTAAGTGTGCG-GGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGGTTC-GATTATATA
56700316 GCACTAAGTGTGCGAGGTT-GATTATATA
1 GCACTAAGTGTGCGAGGTTCGATTATATA
*
56700344 GCACTAAGTGTGCGA-GTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGGTTCGATTATAT-A
56700372 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
56700386 GGCTTATTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
27 4 0.06
28 42 0.66
29 14 0.22
30 4 0.06
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGGTTCGATTATATA
Found at i:56708297 original size:29 final size:28
Alignment explanation
Indices: 56708255--56708327 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 28
56708245 CATGAGATTG
56708255 GCACTAAGTGTGCGGGTTCAAAT-TGTATA
1 GCACTAAGTGTGCGGGTTCAAATAT-TA-A
* ** *
56708284 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGGGTTCAAATATTAA
56708312 GCACTAAGTGTGCGGG
1 GCACTAAGTGTGCGGG
56708328 CTTATTATAC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
28 16 0.42
29 21 0.55
30 1 0.03
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCGGGTTCAAATATTAA
Found at i:56717967 original size:29 final size:30
Alignment explanation
Indices: 56717935--56718001 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 30
56717925 GCCCATCCGG
* *
56717935 CCCAATTCACT-TTCATATGGCCTATTAGA
1 CCCAATTCACTATTCACATGGCCCATTAGA
*
56717964 CCCAATT-A-TATTCACATGGCCCATTAGG
1 CCCAATTCACTATTCACATGGCCCATTAGA
*
56717992 CCCAAATCAC
1 CCCAATTCAC
56718002 ATTATATTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
27 1 0.03
28 22 0.71
29 8 0.26
ACGTcount: A:0.30, C:0.31, G:0.10, T:0.28
Consensus pattern (30 bp):
CCCAATTCACTATTCACATGGCCCATTAGA
Found at i:56723657 original size:7 final size:7
Alignment explanation
Indices: 56723645--56723684 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
56723635 TTTTATGAAA
56723645 CCCAAAG
1 CCCAAAG
56723652 CCCAAAG
1 CCCAAAG
56723659 CCCAAAG
1 CCCAAAG
56723666 CCCAAAG
1 CCCAAAG
*
56723673 CCTAAAG
1 CCCAAAG
56723680 CCCAA
1 CCCAA
56723685 TTCATCTAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.42, C:0.42, G:0.12, T:0.03
Consensus pattern (7 bp):
CCCAAAG
Found at i:56725028 original size:24 final size:24
Alignment explanation
Indices: 56725001--56725077 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
56724991 TCTTTTAGTC
56725001 AAATCATGTATTAAAGAAATTATA
1 AAATCATGTATTAAAGAAATTATA
* * * ** * *
56725025 AAATCAAGCATCAATTAGA-CATA
1 AAATCATGTATTAAAGAAATTATA
*
56725048 AAATCATGTATTAAAGCAATTATA
1 AAATCATGTATTAAAGAAATTATA
56725072 AAATCA
1 AAATCA
56725078 CCTAAATTAA
Statistics
Matches: 37, Mismatches: 15, Indels: 2
0.69 0.28 0.04
Matches are distributed among these distances:
23 15 0.41
24 22 0.59
ACGTcount: A:0.53, C:0.10, G:0.08, T:0.29
Consensus pattern (24 bp):
AAATCATGTATTAAAGAAATTATA
Found at i:56735345 original size:47 final size:48
Alignment explanation
Indices: 56735275--56735368 Score: 120
Period size: 47 Copynumber: 2.0 Consensus size: 48
56735265 TTTTCAATTG
*
56735275 GTTATGTATAAATAATACATGTTTTCATT-TTCATTTT-TTTTATTTTA
1 GTTATGTATAAATAATACATGTTTTCATTCTT-ATTTTATTATATTTTA
* ** *
56735322 GTTATGTATATATAATATGTGTTTTTATTCTTATTTTATTATATTTT
1 GTTATGTATAAATAATACATGTTTTCATTCTTATTTTATTATATTTT
56735369 TTGAGGGTGG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
47 30 0.75
48 10 0.25
ACGTcount: A:0.27, C:0.04, G:0.07, T:0.62
Consensus pattern (48 bp):
GTTATGTATAAATAATACATGTTTTCATTCTTATTTTATTATATTTTA
Found at i:56735573 original size:13 final size:13
Alignment explanation
Indices: 56735557--56735591 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
56735547 TAATCCATTG
*
56735557 AGATGATTGTAAA
1 AGATGATCGTAAA
56735570 AGATGATCGTAAA
1 AGATGATCGTAAA
56735583 AGATGATCG
1 AGATGATCG
56735592 ACTAGGGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.43, C:0.06, G:0.26, T:0.26
Consensus pattern (13 bp):
AGATGATCGTAAA
Found at i:56739325 original size:358 final size:355
Alignment explanation
Indices: 56738632--56739686 Score: 1455
Period size: 358 Copynumber: 3.0 Consensus size: 355
56738622 CTCAAGTTCC
* *
56738632 TTTTTAAATTTGTATATGATTTATGTCGGTCATGTATAGTTTTTAAGTGACTATGGATGATGGCA
1 TTTTTAAATTTGTATATGATTTCTGTCGGTCCTGTATAGTTTTTAAGTGACTATGGATGATGGCA
* ** * *
56738697 ACTTTCTCTTCTGTTTCACGTACCAAGTTTGGACCCACTATCTTTCTTTTTCTCAATTCCATCCA
66 ACTTTCTCTTCTGTTTCACGTA-CTAGTTTGGACCCACTATCTTTCTTTCGCTCAATTTCTTCCA
*
56738762 ATAGGTAGGTGTCCTACAC--CT-TC-TAC-AGGCTTCGAATGGAGACATCTTCAGGCTGATGTG
130 ATAGGTAGGTGTCCTACACTTCTACCATACAAGGCTTCGAATGGAGACATCTTCAGGCTGATGTG
* *
56738822 GTAA-TAATTATTATAGGAGAATTCAACTAGAAGGACATACTTCTCCCAGTTTATTCCTAAATCA
195 GTAACT-ATTATTATAGGAGAATTCAACTAGAGGGACATACTTCTCCCAGTTTATTCCAAAATCA
* * * * * *
56738886 CTCACACAGAAACACGTTATATCCTCTAAGACCTAAATAACTTTTTCTGATTGTCCATCAGTCAA
259 ATCACACAGAAACGCATTATATCCTCTAAGACCTGAATAACTTTTTTTGATTG-CCATCAGTCGA
*
56738951 GGGTGAAA-TGCAGTGCTAAATTTTTGGCAGTCT
323 GGGTGAAACT-CAGTGCTAAATTTTTGGCAGTCA
* * *
56738984 TTTTTAAATCTGTATATGATTTCTATCGGTCCTGTATAGTTTTTAAGTGACTATGGATGATGACA
1 TTTTTAAATTTGTATATGATTTCTGTCGGTCCTGTATAGTTTTTAAGTGACTATGGATGATGGCA
* * *
56739049 ACTTTCTCCTCTGTTTAACATACTGAGTTTGGACCCACTATCTTTCTTTCGCTCAATTTCTTCCA
66 ACTTTCTCTTCTGTTTCACGTACT-AGTTTGGACCCACTATCTTTCTTTCGCTCAATTTCTTCCA
* *
56739114 AT-GAGTAGGTGTCCTACATCTTCTACCATACAAGGCCTCAAATGGAGACATCTTCAGGCTGATG
130 ATAG-GTAGGTGTCCTACA-CTTCTACCATACAAGGCTTCGAATGGAGACATCTTCAGGCTGATG
* * * *
56739178 TGGTAACTATTATTGTAGGAGAATTCAACCAGAGGGACATACTTTTCCTAGTTTATTCCAAAATC
193 TGGTAACTATTATTATAGGAGAATTCAACTAGAGGGACATACTTCTCCCAGTTTATTCCAAAATC
* *
56739243 AATCACACAGAAATGCATTATATCCTCTAAGACCTGAATAACTTTTTTTGATTAGCCTTCAGTCG
258 AATCACACAGAAACGCATTATATCCTCTAAGACCTGAATAACTTTTTTTGATT-GCCATCAGTCG
* * *
56739308 AGGGTGAAACTCAGTGCTAGATTTTTGTCTGTCA
322 AGGGTGAAACTCAGTGCTAAATTTTTGGCAGTCA
* *
56739342 TTTTTAAATTTGTATATGATTTCTGTTGGTCCTGTGTAGTTTTTAAGTGACTATGGATGATGGCA
1 TTTTTAAATTTGTATATGATTTCTGTCGGTCCTGTATAGTTTTTAAGTGACTATGGATGATGGCA
* * * * *
56739407 GCTTTCTCTTCTATTTCACGTACTATGTTTGGATCCATTATCTTTCTTTCGCTCAA-TTCTATCA
66 ACTTTCTCTTCTGTTTCACGTACTA-GTTTGGACCCACTATCTTTCTTTCGCTCAATTTCT-TCC
* * * **
56739471 AATAGGCAGGTGTCCTACACCTTCTACCATACAAGGCTTCGAATGGAGACATCTTCAGGTTTACA
129 AATAGGTAGGTGTCCTACA-CTTCTACCATACAAGGCTTCGAATGGAGACATCTTCAGGCTGATG
* * *
56739536 TGGTAACTGTTATTATAGGAGAATTCAACTAGAGGGACATACTTCTCCCAATTTATTCCAAAGTC
193 TGGTAACTATTATTATAGGAGAATTCAACTAGAGGGACATACTTCTCCCAGTTTATTCCAAAATC
* * *
56739601 AATCACACAGGAACGCATTATATCCTCTAAGACCTGAATAACTCTTTTTGGTTGGCCATCAGTCG
258 AATCACACAGAAACGCATTATATCCTCTAAGACCTGAATAACTTTTTTTGATT-GCCATCAGTCG
56739666 AGGGTGAAACGT-AGTGCTAAA
322 AGGGTGAAAC-TCAGTGCTAAA
56739687 ATTTAACTTG
Statistics
Matches: 619, Mismatches: 69, Indels: 24
0.87 0.10 0.03
Matches are distributed among these distances:
351 2 0.00
352 131 0.21
353 1 0.00
355 2 0.00
356 1 0.00
357 8 0.01
358 469 0.76
359 5 0.01
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (355 bp):
TTTTTAAATTTGTATATGATTTCTGTCGGTCCTGTATAGTTTTTAAGTGACTATGGATGATGGCA
ACTTTCTCTTCTGTTTCACGTACTAGTTTGGACCCACTATCTTTCTTTCGCTCAATTTCTTCCAA
TAGGTAGGTGTCCTACACTTCTACCATACAAGGCTTCGAATGGAGACATCTTCAGGCTGATGTGG
TAACTATTATTATAGGAGAATTCAACTAGAGGGACATACTTCTCCCAGTTTATTCCAAAATCAAT
CACACAGAAACGCATTATATCCTCTAAGACCTGAATAACTTTTTTTGATTGCCATCAGTCGAGGG
TGAAACTCAGTGCTAAATTTTTGGCAGTCA
Found at i:56745155 original size:38 final size:39
Alignment explanation
Indices: 56745104--56745194 Score: 132
Period size: 39 Copynumber: 2.4 Consensus size: 39
56745094 GACTTTAGGC
* *
56745104 CCGGATAT-ATTCCAG-ACGTAGCCTGCGGACCTCAAGT
1 CCGGATATGTTTCCAGCACGTAGCCTGCAGACCTCAAGT
*
56745141 CCGGATATGTTTCCAGCACGTAGCTTGCAGACCTCAAGT
1 CCGGATATGTTTCCAGCACGTAGCCTGCAGACCTCAAGT
*
56745180 CCGAATATGTTTCCA
1 CCGGATATGTTTCCA
56745195 AATATCATGC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
37 8 0.17
38 6 0.12
39 34 0.71
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGATATGTTTCCAGCACGTAGCCTGCAGACCTCAAGT
Found at i:56745866 original size:21 final size:21
Alignment explanation
Indices: 56745840--56745880 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
56745830 TGTATATTCT
56745840 AATTTCATAAACTAATTTACG
1 AATTTCATAAACTAATTTACG
56745861 AATTTCATAAACTAATTTAC
1 AATTTCATAAACTAATTTAC
56745881 TAAATCAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTCATAAACTAATTTACG
Found at i:56746274 original size:50 final size:50
Alignment explanation
Indices: 56746178--56746283 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
56746168 ATTGGAACAC
* * * * *
56746178 CACATAAATACTTACCTATATGACCGGATATACCAAATTCATTATATCAT
1 CACATAAATACATACCTATAAGACCGAATATACCAAACTCAATATATCAT
* * *
56746228 TACATAAGTACATACCTATAAGACCGAATATA-CAAGGCTCAATATATCAT
1 CACATAAATACATACCTATAAGACCGAATATACCAA-ACTCAATATATCAT
56746278 CACATA
1 CACATA
56746284 TGGCTAGTTA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
49 3 0.07
50 43 0.93
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (50 bp):
CACATAAATACATACCTATAAGACCGAATATACCAAACTCAATATATCAT
Found at i:56753017 original size:39 final size:39
Alignment explanation
Indices: 56752974--56753095 Score: 199
Period size: 39 Copynumber: 3.1 Consensus size: 39
56752964 CCTGGATATA
56752974 TTCCAGCACGTAGCCTGCGGACCTCAAGTCCGGATATGT
1 TTCCAGCACGTAGCCTGCGGACCTCAAGTCCGGATATGT
** *
56753013 TTCCAGCACGTAGCCTGTAGACCTCAAGTTCGGATATGT
1 TTCCAGCACGTAGCCTGCGGACCTCAAGTCCGGATATGT
* *
56753052 TTCTAGCACGTAGCCTGCGGACCTCAAGTCCTGATATGT
1 TTCCAGCACGTAGCCTGCGGACCTCAAGTCCGGATATGT
56753091 TTCCA
1 TTCCA
56753096 AATATTGAAC
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (39 bp):
TTCCAGCACGTAGCCTGCGGACCTCAAGTCCGGATATGT
Found at i:56753747 original size:21 final size:21
Alignment explanation
Indices: 56753721--56753761 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
56753711 TGTATATTCT
56753721 AATTTCATAAACTAATTTACG
1 AATTTCATAAACTAATTTACG
56753742 AATTTCATAAACTAATTTAC
1 AATTTCATAAACTAATTTAC
56753762 TAAATCAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTCATAAACTAATTTACG
Found at i:56765460 original size:30 final size:30
Alignment explanation
Indices: 56765426--56765486 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
56765416 TCCTTAACTC
56765426 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
56765456 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
56765486 A
1 A
56765487 GGCTCGAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:56785961 original size:28 final size:28
Alignment explanation
Indices: 56785896--56786048 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
56785886 CTATATACGA
*
56785896 CACTTAGTGTGCAAGACATTGAGTA-GG
1 CACTTAGTGTGCGAGACATTGAGTATGG
56785923 CACTTAGTGTGCGAGACATTGAGTATGG
1 CACTTAGTGTGCGAGACATTGAGTATGG
*
56785951 CACTTAGTGTGTGAGACATTGAGTATGG
1 CACTTAGTGTGCGAGACATTGAGTATGG
* * *
56785979 CACTTAGTGTGTGAGACATTGAATATGA
1 CACTTAGTGTGCGAGACATTGAGTATGG
56786007 CACTTAGTGTGCGAGACATTTG-GTATGG
1 CACTTAGTGTGCGAGACA-TTGAGTATGG
*
56786035 AACTTAGTGTGCGA
1 CACTTAGTGTGCGA
56786049 AATATCAAGT
Statistics
Matches: 116, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
27 24 0.21
28 89 0.77
29 3 0.03
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.30
Consensus pattern (28 bp):
CACTTAGTGTGCGAGACATTGAGTATGG
Found at i:56791437 original size:47 final size:47
Alignment explanation
Indices: 56791368--56791491 Score: 176
Period size: 47 Copynumber: 2.6 Consensus size: 47
56791358 GATAAGTACT
* * *
56791368 TATACCATGGCCTATAGCCAAATCAAGGTAACTTATCCCGGAGTAAC
1 TATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCGGAATAAC
* * * *
56791415 TATACCATGGCCCATAGCCAAATCAAGGTAACTCCTCTCTGAATACC
1 TATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCGGAATAAC
*
56791462 TATACCATGGCCCGTAGCCAAATCAAGGTA
1 TATACCATGGCCCATAGCCAAATCAAGGTA
56791492 TTATTTGCAC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (47 bp):
TATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCGGAATAAC
Found at i:56796932 original size:42 final size:41
Alignment explanation
Indices: 56796770--56796930 Score: 153
Period size: 42 Copynumber: 3.8 Consensus size: 41
56796760 ATACCAATGA
* * *
56796770 CATATCCCAGATATGGTCTTACATGGGATCTCATATCGATGC
1 CATATCCCAGATATGGTCTTACA-CGAAACTCATATCGATGC
* * * * **
56796812 CAATAGCCTAGCTATGGTCTTACATGATTCTCATATCGATGC
1 C-ATATCCCAGATATGGTCTTACACGAAACTCATATCGATGC
* * *
56796854 CATGTCCCAGACATGGTCTTACACAAAATCTCATAAT-GATGC
1 CATATCCCAGATATGGTCTTACACGAAA-CTCAT-ATCGATGC
*
56796896 CATATCCCATATATGGTCTTACACGTAAACTCATA
1 CATATCCCAGATATGGTCTTACACG-AAACTCATA
56796931 ATCCTAATGT
Statistics
Matches: 96, Mismatches: 19, Indels: 9
0.77 0.15 0.07
Matches are distributed among these distances:
41 19 0.20
42 53 0.55
43 24 0.25
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (41 bp):
CATATCCCAGATATGGTCTTACACGAAACTCATATCGATGC
Found at i:56807822 original size:37 final size:37
Alignment explanation
Indices: 56807772--56807887 Score: 196
Period size: 37 Copynumber: 3.1 Consensus size: 37
56807762 TTATTACGAA
* * * *
56807772 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
56807809 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
56807846 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
56807883 GTCTT
1 GTCTT
56807888 TAGAGCTCGG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 75 1.00
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
Found at i:56808084 original size:47 final size:47
Alignment explanation
Indices: 56808006--56808331 Score: 535
Period size: 47 Copynumber: 6.9 Consensus size: 47
56807996 CCCTTCGGGA
* * * * * *
56808006 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56808053 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56808100 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56808147 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56808196 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56808243 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56808292 CTTATCACATATATACACTTTCACGTTCATCACATCGGCC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCC
56808332 GTTCATCACA
Statistics
Matches: 264, Mismatches: 11, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
47 170 0.64
49 94 0.36
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56808203 original size:96 final size:96
Alignment explanation
Indices: 56808006--56808486 Score: 564
Period size: 96 Copynumber: 4.9 Consensus size: 96
56807996 CCCTTCGGGA
* * * * * * * *
56808006 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
56808069 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
56808100 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
56808165 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
56808196 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
56808261 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56808292 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCGTTCATCACATCGGCCATTAGGC-C
1 CTTATCACATATATACACTTTCACATTCATCACATCGG-C---CAT----TAGGCC-TTA-TCAC
* * * * * *
56808356 TTATCACATATA--TACACTTTCA-CATTCATC--ACATCGGCCATTAGGC
56 ATAT-ATATACACTTTCACATTCATCA--CATCGGCCAT-------TAGGC
56808402 CTTATCACATAATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CTTATCACAT-ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
56808467 CACTTTCACATTCATCACAT
65 CACTTTCACATTCATCACAT
56808487 AGAATCCTAA
Statistics
Matches: 335, Mismatches: 25, Indels: 46
0.83 0.06 0.11
Matches are distributed among these distances:
94 47 0.14
96 172 0.51
97 1 0.00
100 3 0.01
101 6 0.02
102 10 0.03
103 18 0.05
104 15 0.04
105 11 0.03
106 6 0.02
107 3 0.01
110 16 0.05
111 27 0.08
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56808334 original size:16 final size:16
Alignment explanation
Indices: 56808315--56808347 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
56808305 TACACTTTCA
56808315 CGTTCATCACATCGGC
1 CGTTCATCACATCGGC
56808331 CGTTCATCACATCGGC
1 CGTTCATCACATCGGC
56808347 C
1 C
56808348 ATTAGGCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.39, G:0.18, T:0.24
Consensus pattern (16 bp):
CGTTCATCACATCGGC
Found at i:56808369 original size:63 final size:63
Alignment explanation
Indices: 56808270--56808394 Score: 241
Period size: 63 Copynumber: 2.0 Consensus size: 63
56808260 CACTTTCACA
*
56808270 TTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACGTTCATCACATCGGCCG
1 TTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCG
56808333 TTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
1 TTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
56808395 ATTAGGCCTT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.26, C:0.32, G:0.11, T:0.30
Consensus pattern (63 bp):
TTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCG
Found at i:56808372 original size:159 final size:159
Alignment explanation
Indices: 56808174--56808486 Score: 592
Period size: 159 Copynumber: 2.0 Consensus size: 159
56808164 CACTTTCACA
56808174 TTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATT
1 TTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATT
56808239 AGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATA
66 AGGCCTTATCACATA-ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATA
*
56808303 TATACACTTTCACGTTCATCACATCGGCCG
130 TATACACTTTCACATTCATCACATCGGCCG
56808333 TTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATT
1 TTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATT
56808398 AGGCCTTATCACATAATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
66 AGGCCTTATCACATAATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATA
56808463 TATACACTTTCACATTCATCACAT
130 TATACACTTTCACATTCATCACAT
56808487 AGAATCCTAA
Statistics
Matches: 151, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
158 45 0.30
159 80 0.53
160 26 0.17
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (159 bp):
TTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATT
AGGCCTTATCACATAATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATAT
ATACACTTTCACATTCATCACATCGGCCG
Found at i:56808436 original size:48 final size:48
Alignment explanation
Indices: 56808333--56808486 Score: 292
Period size: 48 Copynumber: 3.2 Consensus size: 48
56808323 ACATCGGCCG
56808333 TTCATCACATCGGCCATTAGGCCTTATCACAT-ATATACACTTTCACA
1 TTCATCACATCGGCCATTAGGCCTTATCACATAATATACACTTTCACA
56808380 TTCATCACATCGGCCATTAGGCCTTATCACATAATATACACTTTCACA
1 TTCATCACATCGGCCATTAGGCCTTATCACATAATATACACTTTCACA
56808428 TTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACA
1 TTCATCACATCGGCCATTAGGCCTTATCACATA-ATATACACTTTCACA
56808477 TTCATCACAT
1 TTCATCACAT
56808487 AGAATCCTAA
Statistics
Matches: 105, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
47 32 0.30
48 48 0.46
49 25 0.24
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (48 bp):
TTCATCACATCGGCCATTAGGCCTTATCACATAATATACACTTTCACA
Found at i:56814176 original size:43 final size:42
Alignment explanation
Indices: 56814110--56814225 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 42
56814100 AGCTTGTACA
** * * *
56814110 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAAGCAAATAT-G
*
56814153 ATGCCACTGTCCCAGACAG-GGTCTTACACGAAAGCAAATATG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGAAAGCAAATATG
* *
56814195 ATGCCAATGTACCAGATGTGGTCTTACACGA
1 ATGCCAATGTCCCAGACGTGGTCTTACACGA
56814226 GAACACATAT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
41 1 0.02
42 27 0.44
43 33 0.53
44 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAAAGCAAATATG
Found at i:56814218 original size:42 final size:43
Alignment explanation
Indices: 56814121--56814225 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 43
56814111 TGCCAACATC
* * * * * *
56814121 CCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTC
1 CCAGAAGTGGTCTTACACGAAAGCAAATATCGATGCCAATGTA
56814164 CCAGACAG-GGTCTTACACGAAAGCAAATAT-GATGCCAATGTA
1 CCAGA-AGTGGTCTTACACGAAAGCAAATATCGATGCCAATGTA
*
56814206 CCAGATGTGGTCTTACACGA
1 CCAGAAGTGGTCTTACACGA
56814226 GAACACATAT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
41 1 0.02
42 27 0.51
43 24 0.45
44 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (43 bp):
CCAGAAGTGGTCTTACACGAAAGCAAATATCGATGCCAATGTA
Found at i:56819776 original size:26 final size:27
Alignment explanation
Indices: 56819747--56819870 Score: 76
Period size: 26 Copynumber: 4.7 Consensus size: 27
56819737 TTAGTTTACC
**
56819747 AAATTACTGAAATACCCCCAG-TTGTA
1 AAATTACCCAAATACCCCCAGATTGTA
* * *
56819773 AAATTA-CCAAAGTACCCCCGGTTTATA
1 AAATTACCCAAA-TACCCCCAGATTGTA
* * **
56819800 AAATCACCCAAATA-TCCTTGATTTGTA
1 AAATTACCCAAATACCCCCAGA-TTGTA
* **
56819827 AAATTACCAAAATACCATC-GATTGTA
1 AAATTACCCAAATACCCCCAGATTGTA
**
56819853 AAATTACTGAAATACCCC
1 AAATTACCCAAATACCCC
56819871 TGTAGGGTAG
Statistics
Matches: 73, Mismatches: 20, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
25 3 0.04
26 36 0.49
27 29 0.40
28 5 0.07
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.27
Consensus pattern (27 bp):
AAATTACCCAAATACCCCCAGATTGTA
Found at i:56819828 original size:27 final size:26
Alignment explanation
Indices: 56819798--56819856 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
56819788 CCCCGGTTTA
* *
56819798 TAAAATCACCCAAATATCC-TTGATTTG
1 TAAAATCACCAAAATA-CCATCGA-TTG
*
56819825 TAAAATTACCAAAATACCATCGATTG
1 TAAAATCACCAAAATACCATCGATTG
56819851 TAAAAT
1 TAAAAT
56819857 TACTGAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 11 0.39
27 17 0.61
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.31
Consensus pattern (26 bp):
TAAAATCACCAAAATACCATCGATTG
Found at i:56819890 original size:27 final size:27
Alignment explanation
Indices: 56819854--56820015 Score: 225
Period size: 27 Copynumber: 6.0 Consensus size: 27
56819844 TCGATTGTAA
56819854 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
56819881 AATTAATGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
56819908 AATTACCGAAATACCCTTGTTGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
56819935 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
56819962 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
56819989 ATTTACTAAAATACCTCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
56820016 GACTACCGAT
Statistics
Matches: 116, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:56819920 original size:54 final size:54
Alignment explanation
Indices: 56819854--56820041 Score: 243
Period size: 54 Copynumber: 3.5 Consensus size: 54
56819844 TCGATTGTAA
* *
56819854 AATTACTGAAATACCCCTGTAGGGTAGAATTAATGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* *
56819908 AATTACCGAAATACCCTTGTTGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* * * * *
56819962 AATTACCGAAATACCCTTGTAGGGTAGATTTACTAAAATACCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* * **
56820016 GACTACCGATTTACCCCTAG-AGGGTA
1 AATTACCGAAATACCCCT-GTAGGGTA
56820042 AAATGACTAT
Statistics
Matches: 119, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
54 118 0.99
55 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (54 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
Found at i:56819953 original size:81 final size:81
Alignment explanation
Indices: 56819828--56820003 Score: 230
Period size: 81 Copynumber: 2.2 Consensus size: 81
56819818 TGATTTGTAA
* * * * *
56819828 AATTACCAAAATACCATCGATT--GTAAAATTACTGAAATACCCCTGTAGGGTAGAATTAATGAA
1 AATTACCAAAATACCCTTG-TTGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAATTAACGAA
56819891 ATACCCCTGTAAGGTAG
65 ATACCCCTGTAAGGTAG
* *
56819908 AATTACCGAAATACCCTTGTTGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAATTACCGAAA
1 AATTACCAAAATACCCTTGTTGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAATTAACGAAA
* *
56819973 TACCCTTGTAGGGTAG
66 TACCCCTGTAAGGTAG
* *
56819989 ATTTACTAAAATACC
1 AATTACCAAAATACC
56820004 TCTGTAGGGT
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 2 0.02
80 16 0.20
81 64 0.78
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (81 bp):
AATTACCAAAATACCCTTGTTGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAATTAACGAAA
TACCCCTGTAAGGTAG
Found at i:56820031 original size:81 final size:81
Alignment explanation
Indices: 56819861--56820033 Score: 204
Period size: 81 Copynumber: 2.1 Consensus size: 81
56819851 TAAAATTACT
* * *
56819861 GAAATACCCCTGTAGGGTAGAATTAATGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCTT
1 GAAATACCCCTGTAAGGTAGAATTAACGAAATACCCCTGTAAGGTAGAATTACCAAAATACCCTT
* * *
56819926 GTTGGGTAGAATTACT
66 GTAGGGTAGAACTACC
* * * * *
56819942 GAAATACCCCTGTAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGATTTACTAAAATA-CCTC
1 GAAATACCCCTGTAAGGTAGAATTAACGAAATACCCCTGTAAGGTAGAATTACCAAAATACCCT-
*
56820006 TGTAGGGTAGGACTACC
65 TGTAGGGTAGAACTACC
**
56820023 GATTTACCCCT
1 GAAATACCCCT
56820034 AGAGGGTAAA
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 3 0.04
81 74 0.96
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (81 bp):
GAAATACCCCTGTAAGGTAGAATTAACGAAATACCCCTGTAAGGTAGAATTACCAAAATACCCTT
GTAGGGTAGAACTACC
Found at i:56822422 original size:79 final size:81
Alignment explanation
Indices: 56822285--56822467 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
56822275 GAATGATATT
* *
56822285 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCAAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGGCAATTG
*
56822349 TGCGAGATACTA-ATTC
66 TGCGAGATACTATA-AC
* * * ** *
56822365 CGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAATT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCAAAGGCAATT
*
56822427 GTGCGAGTTACTATAAC
65 GTGCGAGATACTATAAC
*
56822444 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
56822468 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.64
80 31 0.35
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGGCAATTG
TGCGAGATACTATAAC
Found at i:56822474 original size:40 final size:40
Alignment explanation
Indices: 56822285--56822467 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 40
56822275 GAATGATATT
* * * *
56822285 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATC
* * * *
56822325 CGGACTAAGAT-CCAAAGGCATTTGTGCGAGATACTAATTC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATC
56822365 CGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
* *
56822404 CGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA-C
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATC
*
56822444 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
56822468 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 34 0.28
40 77 0.64
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
Found at i:56822489 original size:79 final size:79
Alignment explanation
Indices: 56822339--56822490 Score: 193
Period size: 79 Copynumber: 1.9 Consensus size: 79
56822329 CTAAGATCCA
* * **
56822339 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 AAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
56822404 CGGGTTAAGTCCCG
66 CGGGTTAAGTCCCG
* * *
56822418 AAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTAT
1 AAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAA
56822481 ATCC-GGTTAA
63 ATCCGGGTTAA
56822491 ATTCTGAAGG
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 36 0.57
80 25 0.40
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
AAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
CGGGTTAAGTCCCG
Found at i:56829867 original size:27 final size:27
Alignment explanation
Indices: 56829814--56829883 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
56829804 ACTTTTTCCT
* *
56829814 CAAAGGCTTTTTTTTGATATTAAGCCA
1 CAAAGGCTTTTCTTTCATATTAAGCCA
* *
56829841 CAAAGGCTTTTCTTTCATTTTACGCCA
1 CAAAGGCTTTTCTTTCATATTAAGCCA
*
56829868 CAAAGACTTTTCTTTC
1 CAAAGGCTTTTCTTTC
56829884 TTGACATGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.41
Consensus pattern (27 bp):
CAAAGGCTTTTCTTTCATATTAAGCCA
Found at i:56836914 original size:27 final size:26
Alignment explanation
Indices: 56836874--56836985 Score: 109
Period size: 27 Copynumber: 4.2 Consensus size: 26
56836864 GGGAAGCGTC
* *
56836874 CTGGTGGCTATGCCACAATTATTTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
56836901 CTGGTCGCTCTGCCACATATTTCT-ATT
1 CTGGTGGCTCTGCCACAT-TATCTGA-T
56836928 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
56836956 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
56836982 CTGG
1 CTGG
56836986 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
26 8 0.11
27 45 0.63
28 17 0.24
29 1 0.01
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:56836984 original size:54 final size:54
Alignment explanation
Indices: 56836874--56836985 Score: 138
Period size: 54 Copynumber: 2.1 Consensus size: 54
56836864 GGGAAGCGTC
* *
56836874 CTGGTGGCTATGCCACAATTATTTGATCTGGTCGCTCTGCCACATATTTCTATT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTCGCTCTGCCACATATATCTATT
* * * *
56836928 CTGGTGGCTCTGCCACGATTATCTGTATCTGGT-GACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTCG-CTCTGCCACATATATCTATT
56836982 CTGG
1 CTGG
56836986 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTCGCTCTGCCACATATATCTATT
Found at i:56860311 original size:40 final size:39
Alignment explanation
Indices: 56860121--56860304 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
56860111 CGAATGATGT
* * * *
56860121 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
56860161 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
56860201 CCGGGCAAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
56860239 TCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
56860280 CCGGGCTATGTCCTGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
56860305 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
39 33 0.27
40 78 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:56860327 original size:79 final size:79
Alignment explanation
Indices: 56860173--56860337 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
56860163 GGACTAAGAT
* **
56860173 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCAAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCAAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
56860238 ATCCGAGTTAAGTC
66 ATCCGAGTTAAATC
* * * *
56860252 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCTGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCAAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
56860315 TATATCCG-GTTAAATT
63 TAAATCCGAGTTAAATC
56860331 CCGAAGG
1 CCGAAGG
56860338 TACGTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCAAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGAGTTAAATC
Found at i:56863402 original size:29 final size:27
Alignment explanation
Indices: 56863384--56863453 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
56863374 ATATTAAGTC
56863384 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
56863411 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
56863439 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
56863454 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:56863447 original size:28 final size:28
Alignment explanation
Indices: 56863384--56863481 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
56863374 ATATTAAGTC
*
56863384 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
56863411 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
56863439 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
56863468 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56863482 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:56866612 original size:54 final size:54
Alignment explanation
Indices: 56866552--56866859 Score: 255
Period size: 54 Copynumber: 5.7 Consensus size: 54
56866542 TTTTACACTA
* ** **
56866552 CAAGGGTATTTCGATAATTTTACAAATTTGGGGTATTTTACTAATTTTACAAAT
1 CAAGGGTATTTTGATAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAAT
** * * * ** *
56866606 TGAGGGTATTTTGATAATTCTAC-ACTACAAGGGTATTTCAGTAGTTTTACAAAT
1 CAAGGGTATTTTGATAATTTTACAAAT-CAGGGGTATTTTGGTAATTTTACAAAT
*** * * * *
56866660 TGGGGGTATTTTGTTAATTTTGCAAAACAGGAGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGATAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAAT
* * * * * *
56866714 CAAGGGTATTTAGGTAATTCTAC-ACTACAAGGGTATTTTGGTAATTTTAAAAAT
1 CAAGGGTATTTTGATAATTTTACAAAT-CAGGGGTATTTTGGTAATTTTACAAAT
** * *
56866768 CAAGAATATTTTGATAATTTTACAAATTAGGGGTATTTCGGTAATTTTACAAAT
1 CAAGGGTATTTTGATAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAAT
* * * *
56866822 CAAGGGT-TTTCGGTAATTTTGCTAATC-GAGGGTATTTT
1 CAAGGGTATTTTGATAATTTTACAAATCAG-GGGTATTTT
56866860 AGCAATTCTA
Statistics
Matches: 197, Mismatches: 52, Indels: 11
0.76 0.20 0.04
Matches are distributed among these distances:
52 1 0.01
53 26 0.13
54 167 0.85
55 3 0.02
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.41
Consensus pattern (54 bp):
CAAGGGTATTTTGATAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAAT
Found at i:56866826 original size:81 final size:81
Alignment explanation
Indices: 56866552--56866841 Score: 273
Period size: 81 Copynumber: 3.6 Consensus size: 81
56866542 TTTTACACTA
* *** ** * ** *
56866552 CAAGGGTATTTCGATAATTTTACAAATTTGGGGTATTTTACTAATTTTACAAATTGAGGGTATTT
1 CAAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTAAAAATCAAGAGTATTT
* *
56866617 TGATAATTCTAC-ACT
66 TGATAATTTTACAAAT
* * *** * * *
56866632 ACAAGGGTATTTCAGTAGTTTTACAAATTGGGGGTATTTTGTTAATTTTGCAAAA-CAGGAGTAT
1 -CAAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTT-AAAAATCAAGAGTAT
*
56866696 TTTGGTAATTTTACAAAT
64 TTTGATAATTTTACAAAT
* * * *
56866714 CAAGGGTATTTAGGTAATTCTAC-ACTACAAGGGTATTTTGGTAATTTTAAAAATCAAGAATATT
1 CAAGGGTATTTCGGTAATTTTACAAAT-CAAGGGTATTTTGGTAATTTTAAAAATCAAGAGTATT
56866778 TTGATAATTTTACAAAT
65 TTGATAATTTTACAAAT
* * *
56866795 TAGGGGTATTTCGGTAATTTTACAAATCAAGGGT-TTTCGGTAATTTT
1 CAAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTT
56866842 GCTAATCGAG
Statistics
Matches: 170, Mismatches: 34, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
80 18 0.11
81 145 0.85
82 7 0.04
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (81 bp):
CAAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTAAAAATCAAGAGTATTT
TGATAATTTTACAAAT
Found at i:56866848 original size:26 final size:27
Alignment explanation
Indices: 56866552--56866858 Score: 226
Period size: 27 Copynumber: 11.4 Consensus size: 27
56866542 TTTTACACTA
*
56866552 CAAGGGTATTTCGATAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
*** ***
56866579 TTGGGGTATTTTACTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
** * * * *
56866606 TGAGGGTATTTTGATAATTCTAC-ACT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
56866632 ACAAGGGTATTTCAGTAGTTTTACAAAT
1 -CAAGGGTATTTCGGTAATTTTACAAAT
*** * * * *
56866660 TGGGGGTATTTTGTTAATTTTGCAAAA
1 CAAGGGTATTTCGGTAATTTTACAAAT
*
56866687 C-AGGAGTATTTTGGTAATTTTACAAAT
1 CAAGG-GTATTTCGGTAATTTTACAAAT
* * *
56866714 CAAGGGTATTTAGGTAATTCTAC-ACT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
56866740 ACAAGGGTATTTTGGTAATTTTAAAAAT
1 -CAAGGGTATTTCGGTAATTTTACAAAT
** * *
56866768 CAAGAATATTTTGATAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
56866795 TAGGGGTATTTCGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
56866822 CAAGGGT-TTTCGGTAATTTTGCTAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
*
56866848 CGAGGGTATTT
1 CAAGGGTATTT
56866859 TAGCAATTCT
Statistics
Matches: 217, Mismatches: 56, Indels: 14
0.76 0.20 0.05
Matches are distributed among these distances:
26 29 0.13
27 181 0.83
28 7 0.03
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTACAAAT
Found at i:56866880 original size:27 final size:27
Alignment explanation
Indices: 56866850--56866904 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
56866840 TTGCTAATCG
* * *
56866850 AGGGTATTTTAGCAATTCTACCCTACA
1 AGGGCATTTCAGCAATACTACCCTACA
* *
56866877 AGGGCATTTCAGTAATACTAGCCTACA
1 AGGGCATTTCAGCAATACTACCCTACA
56866904 A
1 A
56866905 ATATGAGATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (27 bp):
AGGGCATTTCAGCAATACTACCCTACA
Found at i:56871155 original size:42 final size:42
Alignment explanation
Indices: 56871053--56871191 Score: 158
Period size: 44 Copynumber: 3.2 Consensus size: 42
56871043 TGTGTTTTTG
* *
56871053 TGTAAGACCACATCTGGGACATTGGCATTG-ACTTATGATTTACA
1 TGTAAGACCACATCTGGGACGTTGGCATCGTA-TT-TGATTT-CA
*
56871097 TGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTTCA
1 TGTAAGACCACATCTGGGACGTTGGCATCGTATTTGATTTCA
* *
56871139 TGTAAGACC-CTATCTGGGACAG-TGACATCGATATTTGATTACA
1 TGTAAGACCAC-ATCTGGGAC-GTTGGCATCG-TATTTGATTTCA
56871182 TGTAAGACCA
1 TGTAAGACCA
56871192 TGTCTAGGAC
Statistics
Matches: 84, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
41 1 0.01
42 26 0.31
43 27 0.32
44 29 0.35
45 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACATCTGGGACGTTGGCATCGTATTTGATTTCA
Found at i:56871174 original size:43 final size:43
Alignment explanation
Indices: 56871053--56871191 Score: 160
Period size: 43 Copynumber: 3.2 Consensus size: 43
56871043 TGTGTTTTTG
* * *
56871053 TGTAAGACCACATCTGGGACATTGGCATTGACT-TATGATTTACA
1 TGTAAGACCACATCTGGGACAGTGGCATCGA-TATTTGATTT-CA
*
56871097 TGTAAGACCACGTCTGGGAC-GTTGGCATCG-TATTTGATTTCA
1 TGTAAGACCACATCTGGGACAG-TGGCATCGATATTTGATTTCA
* *
56871139 TGTAAGACC-CTATCTGGGACAGTGACATCGATATTTGATTACA
1 TGTAAGACCAC-ATCTGGGACAGTGGCATCGATATTTGATTTCA
56871182 TGTAAGACCA
1 TGTAAGACCA
56871192 TGTCTAGGAC
Statistics
Matches: 82, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
41 1 0.01
42 27 0.33
43 28 0.34
44 26 0.32
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACATCTGGGACAGTGGCATCGATATTTGATTTCA
Found at i:56882782 original size:42 final size:42
Alignment explanation
Indices: 56882718--56882840 Score: 160
Period size: 43 Copynumber: 2.9 Consensus size: 42
56882708 CGATATGTGT
*
56882718 TTTCGTGTAAGACCACGTCTAGGACGTTGGCATCGTATTTGA
1 TTTCATGTAAGACCACGTCTAGGACGTTGGCATCGTATTTGA
56882760 TTTCATGTAAGACC-CTGTCTAGGACAG-TGGCATCGATATTTGA
1 TTTCATGTAAGACCAC-GTCTAGGAC-GTTGGCATCG-TATTTGA
* * * *
56882803 TTACATGTAAGACCACATCTGGGACGTTGGCATTGTAT
1 TTTCATGTAAGACCACGTCTAGGACGTTGGCATCGTAT
56882841 GAGCTTTCCG
Statistics
Matches: 71, Mismatches: 5, Indels: 10
0.83 0.06 0.12
Matches are distributed among these distances:
41 1 0.01
42 34 0.48
43 35 0.49
44 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (42 bp):
TTTCATGTAAGACCACGTCTAGGACGTTGGCATCGTATTTGA
Found at i:56884654 original size:58 final size:58
Alignment explanation
Indices: 56884584--56884695 Score: 188
Period size: 58 Copynumber: 1.9 Consensus size: 58
56884574 CGACGACAAA
* * *
56884584 TCAGCTATATATGGCACTTAGTGTGCGAGATTGAGATAGGTTCGGCTATATATGAGCT
1 TCAGCTATATATGGAAATTAGTGTGCGAGATTGAGATAGCTTCGGCTATATATGAGCT
*
56884642 TCAGCTATATATGGAAATTAGTGTGTGAGATTGAGATAGCTTCGGCTATATATG
1 TCAGCTATATATGGAAATTAGTGTGCGAGATTGAGATAGCTTCGGCTATATATG
56884696 GCACTTTGTA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.34
Consensus pattern (58 bp):
TCAGCTATATATGGAAATTAGTGTGCGAGATTGAGATAGCTTCGGCTATATATGAGCT
Found at i:56885440 original size:7 final size:7
Alignment explanation
Indices: 56885429--56885468 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
56885419 ACATTTCTAT
*
56885429 TCATCCT
1 TCATCCC
56885436 TCATCCC
1 TCATCCC
56885443 TCATCCC
1 TCATCCC
56885450 TCATCCC
1 TCATCCC
56885457 TCATCCC
1 TCATCCC
56885464 TCATC
1 TCATC
56885469 ATTCATCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.15, C:0.53, G:0.00, T:0.33
Consensus pattern (7 bp):
TCATCCC
Found at i:56885474 original size:14 final size:14
Alignment explanation
Indices: 56885429--56885475 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
56885419 ACATTTCTAT
* *
56885429 TCATCCTTCATCCC
1 TCATCCCTCATCAC
*
56885443 TCATCCCTCATCCC
1 TCATCCCTCATCAC
*
56885457 TCATCCCTCATCAT
1 TCATCCCTCATCAC
56885471 TCATC
1 TCATC
56885476 ATTCTCTCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.17, C:0.49, G:0.00, T:0.34
Consensus pattern (14 bp):
TCATCCCTCATCAC
Found at i:56885474 original size:21 final size:21
Alignment explanation
Indices: 56885427--56885475 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
56885417 TTACATTTCT
*
56885427 ATTCATCCTTCATCCCTCATC
1 ATTCATCCCTCATCCCTCATC
**
56885448 CCTCATCCCTCATCCCTCATC
1 ATTCATCCCTCATCCCTCATC
56885469 ATTCATC
1 ATTCATC
56885476 ATTCTCTCCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.18, C:0.47, G:0.00, T:0.35
Consensus pattern (21 bp):
ATTCATCCCTCATCCCTCATC
Found at i:56886503 original size:27 final size:27
Alignment explanation
Indices: 56886465--56886520 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
56886455 GTGACTTAGC
*
56886465 ACAAATGCAATCCCTGATGAGACGATA
1 ACAAATACAATCCCTGATGAGACGATA
56886492 ACAAATACAATCCCTGATGAGACGATA
1 ACAAATACAATCCCTGATGAGACGATA
56886519 AC
1 AC
56886521 TCAATACTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.43, C:0.23, G:0.16, T:0.18
Consensus pattern (27 bp):
ACAAATACAATCCCTGATGAGACGATA
Found at i:56895618 original size:48 final size:48
Alignment explanation
Indices: 56895547--56896018 Score: 387
Period size: 48 Copynumber: 9.8 Consensus size: 48
56895537 GAATTGTCAT
* * * * * * *
56895547 TGCCATGTTCCAAAAATGGTCTTACACTAGCTCACATGTCGAGGTCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCCGA
* * * * *
56895595 TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTC-ATTGTCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGA-GGCCGA
* * *
56895643 TGCAATGTCCCAGACATGGTCTTACACTGGCTCTCATGAT-GTGACCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCGAGGCCGA
* * * * * * **
56895691 TTCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAATACCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCCGA
* * * *
56895739 TGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAAC-ATGACCAA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGA-GGCCGA
* * * * **
56895787 TGCCATGTTCCA-ATTATGGTCTTACACTGGCTCTCATATTGTGGCTAA
1 TGCCATGTCCCAGA-CATGGTCTTACACTGGCTCTCATATCGAGGCCGA
* * * * * * *
56895835 TGCCATGTCCCAAACATGGTCTTACATTAGCACACATATCCATGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCCGA
* * * * **
56895883 TGCCATCTCCTAGACATGGTCTTACACTGGCTCTCACAACGTCGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCCGA
* * * * *
56895931 TGCCATGTTCCAAACATGGTCTTACATTGGCTCTCATATCGTA-GTCAA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCG-AGGCCGA
* *
56895979 TGCCATGTCCCAGACATGGTCTTACACTGGCACACATATC
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC
56896019 ACCCAAATGT
Statistics
Matches: 335, Mismatches: 80, Indels: 18
0.77 0.18 0.04
Matches are distributed among these distances:
47 5 0.01
48 328 0.98
49 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
TGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCCGA
Found at i:56895809 original size:144 final size:141
Alignment explanation
Indices: 56895547--56896019 Score: 563
Period size: 144 Copynumber: 3.3 Consensus size: 141
56895537 GAATTGTCAT
* * * * * * *
56895547 TGCCATGTTCCAAAAATGGTCTTACACTAGCTCACATGTCGAGGTCGATGCCATGTCCCAGACAT
1 TGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAATGCCGATGCCATGTCCCAGACAT
* * * * * *
56895612 GGTCTTACACTAGCTCTCGTC-TCATTGTCGATGCAATGTCCCAGACATGGTCTTACACTGGCTC
66 GGTCTTACACTGGCTCTC-ACAACA-TGCCGATGCCATGTTCCA-ACATGGTCTTACACTGGCTC
*
56895676 TCATGATGTGACCGA
128 TCAT-ATGTGACCAA
* * *
56895691 TTCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAATACCGATGCCATGTCCCAGACAT
1 TGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAATGCCGATGCCATGTCCCAGACAT
* *
56895756 GGTCTTACACTGGCTCTCACAACATGACCAATGCCATGTTCCAATTATGGTCTTACACTGGCTCT
66 GGTCTTACACTGGCTCTCACAACATG-CCGATGCCATGTTCCAA-CATGGTCTTACACTGGCTCT
* *
56895821 CATATTGTGGCTAA
129 CATA-TGTGACCAA
* * * *
56895835 TGCCATGTCCCAAACATGGTCTTACATTAGCACACATATCCATGCCGATGCCATCTCCTAGACAT
1 TGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAATGCCGATGCCATGTCCCAGACAT
* *
56895900 GGTCTTACACTGGCTCTCACAACGTCGCCGATGCCATGTTCCAAACATGGTCTTACATTGGCTCT
66 GGTCTTACACTGGCTCTCACAACAT-GCCGATGCCATGTTCC-AACATGGTCTTACACTGGCTCT
*
56895965 CATATCGT-AGTCAA
129 CATAT-GTGA-CCAA
* *
56895979 TGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCA
1 TGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCA
56896020 CCCAAATGTC
Statistics
Matches: 283, Mismatches: 38, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
143 6 0.02
144 274 0.97
145 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (141 bp):
TGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAATGCCGATGCCATGTCCCAGACAT
GGTCTTACACTGGCTCTCACAACATGCCGATGCCATGTTCCAACATGGTCTTACACTGGCTCTCA
TATGTGACCAA
Found at i:56906605 original size:46 final size:46
Alignment explanation
Indices: 56906538--56906712 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
56906528 TGTAACCCGC
*
56906538 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
*
56906584 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G--T-GTTCGCAT
* * * * ** *
56906634 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTTGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
* *
56906677 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
56906713 TGCCCAATAT
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 61 0.58
47 26 0.25
48 3 0.03
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
Found at i:56906675 original size:93 final size:92
Alignment explanation
Indices: 56906546--56906716 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 92
56906536 GCCCATAAGT
* ** * *
56906546 GAACTCGGACTCAACTCAATGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCAA
56906611 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGG-TGCCTAGTTACATCTCAC
* *
56906639 GAACTCGGACTCAACTCAACGAGTTTGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
56906704 CGAGTTCGGTGCC
66 CGAGCTCGGTGCC
56906717 CAATATCCCA
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
92 4 0.06
93 66 0.94
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGTGCCTAGTTACATCTCAC
Done.